genome.fa.s4.2.7.7.80.10.50.1000.244.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  244  of  255  ( 30512 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79474537--79474600	13	4.9	13	88	0	101	39	25	9	26	1.86
79478820--79478944	60	2.1	60	100	0	250	39	0	6	54	1.26
79479292--79479338	21	2.3	20	86	13	69	72	12	10	4	1.25
79479481--79479526	3	15.7	3	81	4	58	67	0	32	0	0.91
79479480--79479526	23	2.0	23	95	0	85	68	0	31	0	0.90
79480005--79480064	29	2.1	29	81	6	68	68	5	3	23	1.24
79479973--79480577	150	4.0	151	95	2	1033	58	6	7	27	1.51
79480455--79480514	29	2.1	29	84	6	77	65	3	6	25	1.33
79480579--79480620	13	3.3	13	80	6	50	66	4	4	23	1.30
79480626--79480656	6	5.2	6	100	0	62	80	0	0	19	0.71
79480624--79480666	18	2.4	18	80	0	59	72	0	0	27	0.85
79482568--79482701	72	1.9	72	90	3	216	21	24	16	37	1.93
79482750--79482829	33	2.4	33	74	0	79	22	41	15	21	1.90
79483058--79483114	24	2.4	24	93	0	96	28	0	12	59	1.33
79483271--79483308	17	2.2	17	90	9	60	47	10	10	31	1.72
79488059--79488187	50	2.5	51	88	5	190	34	16	23	25	1.95
79488163--79488311	31	4.8	31	93	3	246	26	19	28	24	1.99
79488380--79488551	49	3.7	47	84	8	196	29	14	26	29	1.95
79488472--79488562	42	2.2	42	88	7	132	31	13	26	28	1.93
79489651--79489714	21	2.9	22	79	6	76	40	25	18	15	1.90
79489651--79489716	23	3.0	23	80	6	91	40	24	19	15	1.90
79490436--79490462	5	5.4	5	100	0	54	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79490485--79490513	8	3.6	8	100	0	58	62	0	0	37	0.96
79490434--79490532	49	2.0	49	84	13	130	56	4	0	39	1.18
79492907--79492969	26	2.5	25	85	12	85	44	9	7	38	1.66
79493067--79493111	16	2.8	16	80	9	56	2	22	0	75	0.91
79493067--79493107	17	2.5	16	88	4	55	2	21	0	75	0.92
79493244--79493290	19	2.4	20	89	3	69	6	8	8	76	1.15
79493242--79493290	20	2.5	20	86	10	73	8	8	8	75	1.19
79497799--79497838	20	2.0	20	85	5	53	72	5	12	10	1.26
79501991--79502057	24	2.8	23	71	10	55	37	0	8	53	1.32
79502330--79502363	18	1.9	18	88	5	52	29	0	5	64	1.17
79503750--79503798	18	2.7	19	81	6	57	30	0	2	67	1.02
79503738--79503781	23	2.0	22	86	4	61	34	0	0	65	0.93
79515390--79515450	32	1.9	32	83	6	79	42	8	8	40	1.64
79515527--79515562	18	2.0	18	88	0	54	30	5	11	52	1.59
79520076--79520105	16	1.9	15	93	6	51	16	6	16	60	1.56
79520580--79520626	24	1.9	25	95	4	87	42	6	17	34	1.74
79520870--79520926	18	3.2	18	75	7	53	49	0	3	47	1.18
79521617--79521673	16	3.6	16	95	0	87	29	0	36	33	1.58
79521919--79521953	18	2.0	17	88	5	52	54	0	0	45	0.99
79526192--79526234	21	2.0	21	95	0	77	27	0	37	34	1.57
79526215--79526247	16	2.1	16	94	0	57	33	0	36	30	1.58
79526226--79526320	45	2.1	44	88	1	136	34	5	27	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79526482--79526516	18	2.0	17	88	5	52	54	0	0	45	0.99
79526440--79526512	27	2.7	27	76	8	76	52	2	0	45	1.15
79526401--79526672	144	1.9	147	94	3	487	46	3	2	47	1.34
79526626--79526660	18	2.0	17	88	5	52	54	0	0	45	0.99
79526646--79526824	55	3.1	54	64	22	128	49	7	2	41	1.43
79526641--79526828	61	3.1	61	68	14	190	49	6	2	41	1.41
79526609--79526831	120	1.9	120	97	0	419	49	6	2	42	1.40
79526746--79526780	18	2.0	17	88	5	52	60	0	0	40	0.97
79526821--79526867	17	2.9	16	78	18	53	46	2	6	44	1.40
79526840--79526873	17	2.0	17	94	0	59	50	0	5	44	1.26
79526732--79527109	93	4.0	91	71	16	279	47	4	3	44	1.41
79535329--79535367	18	2.2	18	90	4	62	66	0	0	33	0.92
79536173--79536210	20	1.9	20	94	0	67	55	0	0	44	0.99
79537787--79537849	31	2.0	31	90	0	99	47	9	9	33	1.68
79539979--79540216	49	4.8	49	82	3	305	29	26	18	25	1.98
79539985--79540061	26	3.1	26	65	24	74	32	27	14	25	1.94
79539987--79540219	100	2.3	99	86	2	324	29	26	18	26	1.98
79542049--79542114	31	2.1	31	85	0	87	40	4	12	42	1.62
79556083--79556173	45	2.0	44	85	2	119	32	5	27	34	1.80
79556437--79556488	15	3.6	15	80	12	56	53	1	0	44	1.11
79556321--79556641	119	2.7	120	97	1	610	50	5	1	42	1.32
79556577--79556624	18	2.8	18	74	22	50	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79556556--79556607	15	3.6	15	80	12	56	53	1	0	44	1.11
79556533--79556616	43	1.9	43	83	7	107	54	2	1	41	1.21
79558918--79558951	12	2.7	13	95	4	61	61	8	29	0	1.26
79558996--79559032	19	1.9	19	94	0	65	45	10	43	0	1.39
79559364--79559399	18	2.0	18	94	0	63	30	11	16	41	1.83
79565016--79565119	51	2.0	51	92	0	172	35	46	3	14	1.63
79566496--79566556	19	3.5	19	68	21	60	60	13	19	6	1.54
79566497--79566566	33	2.1	33	100	0	140	60	11	20	8	1.57
79568331--79568369	19	2.0	20	85	5	53	46	0	0	53	1.00
79573842--79573879	19	2.0	19	100	0	76	36	21	0	42	1.53
79577570--79577612	16	2.6	17	82	14	54	41	2	0	55	1.12
79579522--79579573	26	2.0	26	85	7	70	26	3	3	65	1.27
79591310--79591355	18	2.5	18	82	3	56	32	2	0	65	1.05
79597817--79597849	15	2.3	15	89	5	50	57	0	9	33	1.30
79599994--79600065	9	8.0	9	70	14	51	26	4	2	66	1.23
79599987--79600063	28	2.8	28	82	4	93	28	3	3	63	1.30
79612748--79612964	74	2.8	78	87	3	289	29	16	22	31	1.96
79612742--79612969	79	2.9	79	83	7	279	28	17	21	33	1.96
79612956--79612984	15	1.9	15	100	0	58	13	17	6	62	1.52
79612995--79613146	79	1.9	78	90	1	241	30	17	19	33	1.94
79612822--79613209	178	2.2	177	94	0	668	28	15	18	36	1.92
79613160--79613263	54	1.9	53	92	5	174	30	10	17	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79613386--79613415	13	2.3	13	94	0	51	13	10	6	70	1.34
79613418--79613530	60	1.9	60	92	0	190	31	14	14	39	1.85
79615230--79615450	46	4.8	46	82	8	261	21	19	29	30	1.97
79618347--79618415	15	4.6	15	83	0	84	11	17	13	57	1.64
79618338--79618417	30	2.7	30	81	11	92	12	17	13	56	1.68
79620945--79621166	46	4.8	46	82	7	261	21	19	29	30	1.97
79620964--79621041	26	3.2	26	63	26	71	21	19	28	30	1.97
79620991--79621159	93	1.8	93	89	0	266	21	19	29	29	1.98
79624273--79624329	28	2.0	28	86	6	80	28	7	3	61	1.39
79626216--79626281	30	2.2	30	94	0	114	27	3	13	56	1.52
79626379--79626405	12	2.2	12	100	0	54	70	0	0	29	0.88
79630519--79630642	46	2.8	46	91	3	200	27	22	16	33	1.96
79630519--79630716	37	4.8	45	84	10	207	26	21	16	35	1.94
79630605--79630743	37	3.8	37	95	0	233	25	21	13	38	1.90
79638177--79638300	46	2.8	46	91	3	200	27	22	16	33	1.96
79638177--79638374	37	4.8	45	84	10	207	26	21	16	35	1.94
79638263--79638401	37	3.8	37	95	0	233	25	21	13	38	1.90
79644204--79644250	18	2.6	17	80	9	58	53	2	0	44	1.12
79670441--79670512	24	3.1	24	80	9	69	58	1	4	36	1.26
79671154--79671206	13	4.0	13	79	11	54	24	0	3	71	1.02
79671256--79671294	17	2.3	17	86	8	53	71	0	10	17	1.12
79676656--79676715	22	2.7	22	82	5	68	60	13	16	10	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
79677534--79677582	21	2.3	23	80	16	61	22	6	30	40	1.78
79686524--79686677	66	2.3	65	83	9	188	62	1	7	28	1.32
79686510--79686783	73	3.9	73	78	10	250	60	2	7	28	1.38
79688850--79688927	27	2.9	27	81	11	88	17	21	21	38	1.93
79688893--79688946	27	2.0	27	85	0	72	14	29	22	33	1.94
79690216--79690244	12	2.3	13	94	5	51	27	0	17	55	1.42
79694565--79694711	46	3.2	46	87	1	188	19	23	16	40	1.90
79694675--79694741	30	2.2	30	100	0	134	22	26	17	32	1.96
79694705--79694860	46	3.6	46	85	13	247	24	25	15	34	1.95
79694645--79694860	76	2.7	81	88	7	309	23	25	15	35	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255